D-I-TASSER Q8TAE7-D3

D-I-TASSER results for Q8TAE7-D3

[Click result.zip to download all results on this page]

Input Sequence in FASTA format

>Q8TAE7 (130 residues)
IGLQTLGLTLKRCYREMVMLLVFICVAMAIFSALSQLLEHGLDLETSNKDFTSIPAACWW
VIISMTTVGYGDMYPITVPGRILGGVCVVSGIVLLALPITFIYHSFVQCYHELKFRSARY
SRSLSTEFLN

Predicted Secondary Structure

Sequence	20 40 60 80 100 120 \| \| \| \| \| \| IGLQTLGLTLKRCYREMVMLLVFICVAMAIFSALSQLLEHGLDLETSNKDFTSIPAACWWVIISMTTVGYGDMYPITVPGRILGGVCVVSGIVLLALPITFIYHSFVQCYHELKFRSARYSRSLSTEFLN
Prediction	CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHHHSSCCCCCCCSSCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCC
Confidence	7288999999999999999999999999999999999872456678988888634666443212227898854245711999999999999999999999999999999999999999998656787439
	H:Helix; S:Strand; C:Coil

Predicted Solvent Accessibility

Sequence	20 40 60 80 100 120 \| \| \| \| \| \| IGLQTLGLTLKRCYREMVMLLVFICVAMAIFSALSQLLEHGLDLETSNKDFTSIPAACWWVIISMTTVGYGDMYPITVPGRILGGVCVVSGIVLLALPITFIYHSFVQCYHELKFRSARYSRSLSTEFLN
Prediction	6133201400341243011123333333333232011013334474455414412302110111234443423214233022201331333333333332321230253145454555545563565448
	Values range from 0 (buried residue) to 8 (highly exposed residue)

Predicted Contact, Hydrogen and Distance Map Used in D-I-TASSER simulation

Contact Map

Distance Map

Hydrogen bond networks

D-I-TASSER simulation is guided by the consensus contact map (left figure), distance map (middle figure) and Hydrogen bond network (right figure) derived based on confidence scores of DeepPotential. In the contact, distance map and hydrogen bond networks, the axes mark the residue index along the sequence. For the contact map, each dot represents a residue pair with predicted contact, while for the distance map and hydrogen bond network, a color scale represents a distance of 1-20+ angstroms or a angle of 0-180 degree.

Top 10 threading templates used by D-I-TASSER

Rank

PDB
hit

ID1

ID2

Cov

Norm.
Zscore

Download
alignment

                  20                  40                  60                  80                 100                 120

                   |                   |                   |                   |                   |                   |

SS
Seq

CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHHHSSCCCCCCCSSCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCC
IGLQTLGLTLKRCYREMVMLLVFICVAMAIFSALSQLLEHGLDLETSNKDFTSIPAACWWVIISMTTVGYGDMYPITVPGRILGGVCVVSGIVLLALPITFIYHSFVQCYHELKFRSARYSRSLSTEFLN

6v1qA

0.12

4.06

1.17

DEthreader

-----R-RSIRNALPQISYVFFLFMFSVLVFSLMALKLFGK-RGLLTIPYFTDYMDIVFDLYVLVTTANSPDVMPASVYFTIFFILYIVINYTFMSFFLAVVYNNYKKYLKEEVRQLVKAKRIKMCRAFS

2r9rB3

0.42

0.35

10.40

1.40

SPARKS-K

KGLQILGQTLKASMRELGLLIFFLFIGVILFSSAVYFAEA----DERDSQFPSIPDAFWWAVVSMTTVGYGDMVPTTIGGKIVGSLCAIAGVLTIALPVPVIVSNFNYFYHRET----------------

5vmsA

0.22

6.81

0.63

MapAlign

GTWRLLGSVVFIHRQELITTLYIGFLGLIFSSYFVYLAEKDAIDSSGEYQFGSYADALWWGVVTVTTIGYGDKVPQTWIGKTIASCFSVFAISFFALPAGILGSGFALKVQIPAAASLIQTAWRCYAAE-

5vmsA

0.22

6.82

0.52

CEthreader

GTWRLLGSVVFIHRQELITTLYIGFLGLIFSSYFVYLAEKDAIDSSGEYQFGSYADALWWGVVTVTTIGYGDKVPQTWIGKTIASCFSVFAISFFALPAGILGSGFALKVQQKQRQKHFNRQIPAAASLI

2r9rB3

0.42

0.35

10.40

1.66

MUSTER

KGLQILGQTLKASMRELGLLIFFLFIGVILFSSAVYFAEA----DERDSQFPSIPDAFWWAVVSMTTVGYGDMVPTTIGGKIVGSLCAIAGVLTIALPVPVIVSNFNYFYHRET----------------

4chvA1

0.25

0.24

7.40

1.59

HHsearch

TFFPVLGRVLANEARNLIGVTTLFGVVLFAVALAAYVIERDIQ----PEKFGSIPQAMWWAVVTLSTTGYGDTIPQSFAGRVLAGAVMMSGIGIFGLWAGILATGFYQEVRRGDFVRNW-QLVAAVEIVR

2r9rB3

0.43

0.35

10.38

2.00

FFAS-3D

-GLQILGQTLKASMRELGLLIFFLFIGVILFSSAVYFAEA----DERDSQFPSIPDAFWWAVVSMTTVGYGDMVPTTIGGKIVGSLCAIAGVLTIALPVPVIVSNFNYFYHRE-----------------

5vmsA

0.22

6.82

1.00

EigenThreader

GTWRLLGSVVFIHRQELITTLYIGFLGLIFSSYFVYLAEKDAIDSSGEYQFGSYADALWWGVVTVTTIGYGDKVPQTWIGKTIASCFSVFAISFFALPAGILGSGFALKVQQKQRQKHFNRQIPAAASLI

1f6gA

0.28

0.27

8.24

0.77

CNFpred

RLVKLLLGRHGLHWAAAGAATVLLVIVLLAGSYLAVLAERGA----PGAQLITYPAALWWSVETATTVGYGDLYPVTLWGRCVAVVVMVAGITSFGLVTAALATWFVGREQERRGHFVRHSEKAAEEAYT

6nq0A

0.18

0.16

5.26

1.17

DEthreader

------KCIRW-SLPEMASVGLLLAIHLCLFTMFGMLLFA---G---LTYFQNLPESLTSLLVLLTTANNPDVMIAYRAYAIFFIVFTVIGLFLMNLLTAIIYSQFRGYLMKSLQTSLFRRRLGTRAAFE

(a)	ID1 is the number of template residues identical to query divided by number of aligned residues.
(b)	ID2 is the number of template residues identical to query divided by query sequence length.
(c)	Cov is equal the number of aligned template residues divided by query sequence length.
(d)	Norm. Zscore is the normalized Z-score of the threading alignments. A Normalized Z-score >1 means a good alignment and is highlighted in bold.
(e)	Download alignment lists the threading program used to identify the template, and provide the 3D structure of aligned regions of threading templates (threading[1-10].pdb.gz).
(f)	Template residues identical to query sequence are highlighted in color.

Top 1 final models from D-I-TASSER

Click to view	Rank^a	Download	Estimated TM-score^b
	1	model1.pdb.gz	0.7461

(a)

D-I-TASSER simulations generate a large ensemble of structural conformations, i.e. decoys. These decoys are clustered by SPICKER based on pairwise structure similarity to report up to five final models from the five largest clusters. Models are ranked in descending order of cluster size. If the simulations converge well, it is possible to have less than 5 models generated, which is usually an indication of good model quality.

(b)

The model confidence is quantitatified by estimated TM-score (eTM-score), calculated based on significance of threading template alignments, contact map satisfaction rate, mean absolute error between distance of model and distance of DeepPotential, and convergence of D-I-TASSER simulations. eTM-score is typically in the range of [0, 1], with higher eTM-score signifies higher model confidence.

Proteins with similar structure

Top 10 structural analogs in PDB (as identified by TM-align)

Rank	PDB Hit	TM-score	RMSD^a	IDEN^a	Cov.	Download Alignment
1	6v1qA	0.82	2.46	0.131	1.000	model1_6v1qA.pdb.gz
2	6nq0A	0.78	2.33	0.185	0.954	model1_6nq0A.pdb.gz
3	7bylA	0.78	2.51	0.282	0.946	model1_7bylA.pdb.gz
4	5vmsA	0.77	2.60	0.230	0.931	model1_5vmsA.pdb.gz
5	2zd9C	0.77	2.17	0.250	0.862	model1_2zd9C.pdb.gz
6	5xsyA	0.76	3.10	0.087	0.977	model1_5xsyA.pdb.gz
7	5x0mA	0.75	3.05	0.125	0.962	model1_5x0mA.pdb.gz
8	5k47A2	0.75	2.28	0.154	0.900	model1_5k47A2.pdb.gz
9	5k7lA	0.74	2.66	0.154	0.900	model1_5k7lA.pdb.gz
10	7cr0A2	0.74	2.32	0.278	0.885	model1_7cr0A2.pdb.gz

(a)	Query structure is shown in cartoon, while the structural analog is displayed using backbone trace.
(b)	Ranking of proteins is based on TM-score of the structural alignment between the query structure and known structures in the PDB library.
(c)	RMSD^a is the RMSD between residues that are structurally aligned by TM-align.
(d)	IDEN^a is the percentage sequence identity in the structurally aligned region.
(e)	Cov. represents the coverage of the alignment by TM-align and is equal to the number of structurally aligned residues divided by length of the query protein.

Predicted Gene Ontology (GO) Terms

Molecular Function (MF)

GO term	Cscore^GO	Name
GO:0005261	1.00	cation channel activity
GO:0005249	0.99	voltage-gated potassium channel activity
GO:0005251	0.96	delayed rectifier potassium channel activity

Download full result of the above consensus prediction.

Click the graph to show a high resolution version.

(a)

Cscore^GO is the confidence score of predicted GO terms. Cscore^GO values range in between [0-1]; where a higher value indicates a better confidence in predicting the function using the template.

(b)

The graph shows the predicted terms within the Gene Ontology hierachy for Molecular Function. Confidently predicted terms are color coded by Cscore^GO:

[0.4,0.5)

[0.5,0.6)

[0.6,0.7)

[0.7,0.8)

[0.8,0.9)

[0.9,1.0]

Biological Process (BP)

GO term	Cscore^GO	Name
GO:0006810	0.90	transport
GO:0044699	0.89	single-organism process
GO:0006811	0.88	ion transport
GO:0030001	0.85	metal ion transport
GO:0006813	0.84	potassium ion transport
GO:0009987	0.83	cellular process
GO:0044763	0.79	single-organism cellular process
GO:0065007	0.67	biological regulation
GO:0055085	0.56	transmembrane transport
GO:0050789	0.56	regulation of biological process
GO:0034220	0.54	ion transmembrane transport
GO:0098662	0.50	inorganic cation transmembrane transport
GO:0071804	0.50	cellular potassium ion transport

Download full result of the above consensus prediction.

Click the graph to show a high resolution version.

(a)

Cscore^GO is the confidence score of predicted GO terms. Cscore^GO values range in between [0-1]; where a higher value indicates a better confidence in predicting the function using the template.

(b)

The graph shows the predicted terms within the Gene Ontology hierachy for Biological Process. Confidently predicted terms are color coded by Cscore^GO:

[0.4,0.5)

[0.5,0.6)

[0.6,0.7)

[0.7,0.8)

[0.8,0.9)

[0.9,1.0]

Cellular Component (CC)

GO term	Cscore^GO	Name
GO:0044425	0.98	membrane part
GO:0016021	0.92	integral component of membrane
GO:0044464	0.89	cell part
GO:0016020	0.63	membrane
GO:0005886	0.54	plasma membrane

Download full result of the above consensus prediction.

Click the graph to show a high resolution version.

(a)

Cscore^GO is the confidence score of predicted GO terms. Cscore^GO values range in between [0-1]; where a higher value indicates a better confidence in predicting the function using the template.

(b)

The graph shows the predicted terms within the Gene Ontology hierachy for Cellular Component. Confidently predicted terms are color coded by Cscore^GO:

[0.4,0.5)

[0.5,0.6)

[0.6,0.7)

[0.7,0.8)

[0.8,0.9)

[0.9,1.0]

Predicted Enzyme Commission (EC) Numbers

Top 5 enzyme homologs in PDB

Rank	Cscore^EC	PDB Hit	TM-score	RMSD^a	IDEN^a	Cov.	EC Number	Predicted Active Site Residues
1	0.066	2wieA	0.451	2.88	0.038	0.592	3.6.3.14	NA
2	0.060	3g61A	0.545	2.96	0.045	0.700	3.6.3.44	NA
3	0.060	1mo7A	0.294	4.39	0.038	0.485	3.6.3.9	NA
4	0.060	3b8eC	0.521	4.12	0.096	0.800	3.6.3.9	NA
5	0.060	1y791	0.515	3.87	0.075	0.800	3.4.15.5	NA

	Click on the radio buttons to visualize predicted active site residues.
(a)	Cscore^EC is the confidence score for the Enzyme Commission (EC) number prediction. Cscore^EC values range in between [0-1]; where a higher score indicates a more reliable EC number prediction.
(b)	TM-score is a measure of global structural similarity between query and template protein.
(c)	RMSD^a is the RMSD between residues that are structurally aligned by TM-align.
(d)	IDEN^a is the percentage sequence identity in the structurally aligned region.
(e)	Cov. represents the coverage of global structural alignment and is equal to the number of structurally aligned residues divided by length of the query protein.

Predicted Ligand Binding Sites

Template proteins with similar binding site:

Rank	Cscore^LB	PDB Hit	TM-score	RMSD^a	IDEN^a	Cov.	BS-score	Lig. Name	Download Complex	Predicted binding site residues
1	0.17	2dweC	0.655	2.23	0.294	0.785	1.40	L2C	complex1.pdb.gz	76,77,78,81,85
2	0.10	2r9rH	0.726	1.93	0.427	0.846	0.94	PGW	complex2.pdb.gz	55,56,58,59,62
3	0.05	2dwdC	0.654	2.26	0.304	0.785	0.94	TBA	complex3.pdb.gz	64,65,66,88,91
4	0.01	3pmvA	0.315	4.54	0.028	0.515	0.59	557	complex4.pdb.gz	71,72,73,74
5	0.01	3ijoH	0.280	4.43	0.031	0.462	0.53	B4D	complex5.pdb.gz	63,91,92,95
6	0.01	3ijoE	0.281	4.45	0.041	0.462	0.58	B4D	complex6.pdb.gz	61,81,84,87,88

	Click on the radio buttons to visualize predicted binding site and residues.
(a)	Cscore^LB is the confidence score of predicted binding site. Cscore^LB values range in between [0-1]; where a higher score indicates a more reliable ligand-binding site prediction.
(b)	BS-score is a measure of local similarity (sequence & structure) between template binding site and predicted binding site in the query structure. Based on large scale benchmarking analysis, we have observed that a BS-score >1 reflects a significant local match between the predicted and template binding site.
(c)	TM-score is a measure of global structural similarity between query and template protein.
(d)	RMSD^a the RMSD between residues that are structurally aligned by TM-align.
(e)	IDEN^a is the percentage sequence identity in the structurally aligned region.
(f)	Cov. represents the coverage of global structural alignment and is equal to the number of structurally aligned residues divided by length of the query protein.

[Click result.zip to download all results on this page]

References:
1.	Wei Zheng, Chengxin Zhang, Yang Li, Robin Pearce, Eric W. Bell, Yang Zhang. Folding non-homology proteins by coupling deep-learning contact maps with I-TASSER assembly simulations. In preparation, 2020.